I would LOVE to be able to fly a Wells-class Federation timeship! Some new phased chroniton weaponry and a new ability for the ship (balanced, of course).
It would be nice to have a "Time Jump" feature where, say if you're in a battle and someone is on your tail and has you in perfect firing position where you are unable to hit them, or perhaps when you were seriously damaged, a Wells class can "blink out" and appear maybe 15-20k clicks out from your previous position, with a timed cooldown.
You find a spot in time just before or after your current conflict where no one is there, and time warp there. Then you travel the 15-20k clicks away and time warp back to the moment just after you left.